Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0000571

Physical Location & Seq

Genomic Coordinates Forward (+)

53901050 .. 53902408

Gene Structure 1359 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000014490

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1359 bp

ATGACGAGTGGAAATGTTATGCCTAGGACTAAGACTTGTAATGAATTGTTGAGTTTATTTTCGAAATTGAATCGAACCGAGAGGGCTTGGGTTTTGTATGCTGACATGTTTAGGTTGAAGATCAAGTCCAGTGTTTGTACTTTTAACATCATGATTAATGTGTTGTGCAAAGAAGGCAAGTTGAACAAGGCCAAGGAGTTCCTTGGGTTTATGGAGATTTTGGGGATTAAGCCTACTGTAGTTACTTACAATACTATCATTCATGGGTTTTGTTTGAGAGGTAGAGTTGGAGGGGTTCAGATGATCTTTAGTGCTATGAAAGGGAGAGGAGTTCAGCCGGATTCTTACACGTATGGATTGCTTATTAATGGGATGTGTAAGGAGAGAAGACTTGATGAAGCGTTTGGTCTTTTTGATAAAATGCTGGAAATTGGGCTGCTTCCGAGTGCTGTTACTTATAACACATTGATTGACGGTTATTGCAATAACGGTGATCTAAACAGGGCTTTCGATTATAGAGATGAGATGGTGAAGAAGGGTATAATGCCGATGGTGTCAACTTACAATTTGTTGATTCATGAATTGTTCATGGAAGGTAGGGTGAGTGAAGCTGATTGTATGTTTCGAGAAATGGAAGATAAGGGAATGATTCCTGATGCCATTACATATAATATCCTGATTAATGGCTATTGCAGGTCTGGGAATGCAAAGAAAGCGTTTATCCTTCGTGATGAAATGTTGAGTAAAGGGATAGAAACCACTAAGGAAACTTATACATCGCTTACTTATGTTTTGAGTAAAAGGAAGAGAATGAATGAGGCAGATGACTTGTTTGAGAAGATACTGCATAAGGGTGTTGTGCCAGGTCTTGTGATGTTCAATGCGTTGATTGATGGTCATTGTGCAAATGGGAATATGGAGCGTGCATTTTCGCTTTTGAGGGAGATGGATAAAATGAAGGTTCATCCAGATGAAGTGACTTACAATACCCTACTGCAAGGGTGCTGCAGGGCAGGGAAAATTGAGGAAGCTCGAGAACTCCTGGATGAGATGAAGAGAAGGGGAATTAAGCCTGATTACATTAGTTACAACACCCTCATTAGTGGACATAGTAAACGAGGTGATATGAATGATGCCTTCAGAGTTCGAGACGAGATGTTGAGTATAGGTTTCAATCCTACACTTCTGACGTACAATGCTCTTATAAAGGGTGTATGCAAAAACCAAGAAGGTGATCTTGCTCAAGACCTCCTTAAAGACATGGTGAGCAGAGGGATTACTCCCAATGACAGCACATATTGCTTTCTGATTGAGGGAATTGAGAATGTTGAGGAATTTCTCAGAAAGGGCGATTCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3 PPR_long

Protein Analysis

453

Amino Acids

51.32

Weight (kDa)

7.85

Isoelectric Point (pI)

28.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	9 - 57	1.8e-10	PPR repeat family
PPR_3	PF13812	32 - 88	9.2e-09	Pentatricopeptide repeat domain
PPR_1	PF12854	42 - 72	7.4e-09	PPR repeat
PPR_2	PF13041	44 - 91	7.6e-15	PPR repeat family
PPR_1	PF12854	75 - 96	2e-09	PPR repeat
PPR_2	PF13041	78 - 127	6.1e-17	PPR repeat family
PPR_long	PF17177	100 - 192	5.5e-07	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	102 - 157	5.6e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	109 - 141	8.7e-13	PPR repeat
PPR	PF01535	116 - 146	1.1e-07	PPR repeat
PPR_2	PF13041	119 - 162	5.5e-14	PPR repeat family
PPR_3	PF13812	137 - 192	6.4e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	145 - 177	1.5e-12	PPR repeat
PPR_2	PF13041	148 - 183	1.6e-11	PPR repeat family
PPR	PF01535	151 - 181	1e-09	PPR repeat
PPR_2	PF13041	184 - 232	2.6e-16	PPR repeat family
PPR_3	PF13812	208 - 261	1.7e-06	Pentatricopeptide repeat domain
PPR_1	PF12854	214 - 246	2e-12	PPR repeat
PPR_2	PF13041	218 - 261	2.1e-13	PPR repeat family
PPR	PF01535	221 - 251	5.7e-09	PPR repeat
PPR_long	PF17177	271 - 375	2.3e-08	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	277 - 335	1e-08	Pentatricopeptide repeat domain
PPR_1	PF12854	284 - 316	5.6e-10	PPR repeat
TPR_24	PF23276	285 - 382	2.8e-09	Fungal tetratrico peptide repeats
PPR_2	PF13041	288 - 337	2e-18	PPR repeat family
PPR	PF01535	291 - 320	1.3e-07	PPR repeat
PPR_long	PF17177	309 - 403	2.2e-09	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	321 - 352	3.5e-14	PPR repeat
PPR_2	PF13041	323 - 363	1.4e-15	PPR repeat family
PPR	PF01535	326 - 356	5.3e-12	PPR repeat
PPR_3	PF13812	347 - 405	6e-14	Pentatricopeptide repeat domain
PPR_1	PF12854	354 - 386	6.8e-10	PPR repeat
PPR_2	PF13041	358 - 407	3.4e-15	PPR repeat family
PPR	PF01535	361 - 391	5.8e-07	PPR repeat
PPR_1	PF12854	390 - 422	4e-06	PPR repeat
PPR_2	PF13041	393 - 439	6.9e-13	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0000571)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G15630
fragaria_vesca	FvH4_2g07360
malus_domestica	MD02G1234600.v1.1
prunus_persica	Prupe.8G019300_v2.0.a1
pyrus_communis	pycom02g20240 pycom05g06440 pycom10g06900
rosa_chinensis	RchiOBHm_Chr2g0106031 RchiOBHm_Chr2g0124301 RchiOBHm_Chr2g0124591 RchiOBHm_Chr5g0034701 RchiOBHm_Chr6g0257571 RchiOBHm_Chr6g0259961 RchiOBHm_Chr6g0260151 RchiOBHm_Chr6g0260161 RchiOBHm_Chr6g0260361 RchiOBHm_Chr6g0260391 RchiOBHm_Chr6g0260531 RchiOBHm_Chr6g0260541 RchiOBHm_Chr6g0260661 RchiOBHm_Chr6g0260761 RchiOBHm_Chr6g0266771 RchiOBHm_Chr7g0210581 RchiOBHm_Chr7g0225201 RchiOBHm_Chr7g0225221
rosa_laevigata	RLG00000001833 RLG00000001834 RLG00000014081 RLG00000014490 RLG00000014495 RLG00000015073 RLG00000034098
rosa_multiflora	Rmu_sc0000414.1_g000008 Rmu_sc0000546.1_g000067 Rmu_sc0000588.1_g000057 Rmu_sc0000861.1_g000058 Rmu_sc0000861.1_g000059 Rmu_sc0002766.1_g000023 Rmu_sc0002968.1_g000001 Rmu_sc0003786.1_g000024 Rmu_sc0005472.1_g000021 Rmu_sc0010278.1_g000006 Rmu_sc0014629.1_g000014 Rmu_sc0036189.1_g000001
rosa_roxburghii	Rroxscaffold_3G00234010 Rroxscaffold_5G00368980 Rroxscaffold_7G00201460 Rroxscaffold_7G00207310 Rroxscaffold_7G00207360 Rroxscaffold_7G00207370 Rroxscaffold_7G00210730
rosa_rugosa	Rorug05G0196300 Rorug05G0359600 Rorug05G0591800 Rorug05G0592300 Rorug05G0592700 Rorug06G0023500 Rorug07G0228100
rosa_samantha	Rh2CG188200 Rh2DG333800 Rh4DG026900 Rh5CG249600 Rh6BG104200 Rh6BG104500 Rh6BG105900 Rh6BG106000 Rh6CG076700 Rh6CG097500 Rh6CG098200 Rh6CG100800 Rh6CG101000 Rh6CG101200 Rh6CG102400 Rh6CG144100 Rh6DG093200 Rh7AG375200 Rh7AG375300 Rh7BG360300
rosa_wichuraiana	Rw0G020720 Rw5G026430 Rw6G009370 Rw6G009450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	459, 1205
Acc36I	ACCTGC	1 cut(s)	684
AcsI	RAATTY	1 cut(s)	1334
AcuI	CTGAAG	1 cut(s)	1123
AfaI	GTAC	2 cut(s)	139, 1193
AflIII	ACRYGT	2 cut(s)	105, 348
AgsI	TTSAA	5 cut(s)	70, 118, 184, 880, 1174
AjnI	CCWGG	2 cut(s)	862, 1041
AluBI	AGCT	2 cut(s)	611, 1031
AluI	AGCT	2 cut(s)	611, 1031
Alw26I	GTCTC	1 cut(s)	1143
Ama87I	CYCGRG	1 cut(s)	1032
AoxI	GGCC	1 cut(s)	189
ApeKI	GCWGC	2 cut(s)	436, 1005
ApoI	RAATTY	1 cut(s)	1334
AseI	ATTAAT	3 cut(s)	156, 366, 681
AspA2I	CCTAGG	1 cut(s)	23
AsuHPI	GGTGA	6 cut(s)	503, 541, 613, 1133, 1244, 1276
AsuII	TTCGAA	1 cut(s)	62
AvaI	CYCGRG	1 cut(s)	1032
AvrII	CCTAGG	1 cut(s)	23
BbsI	GAAGAC	1 cut(s)	394
BbvI	GCAGC	2 cut(s)	423, 992
BccI	CCATC	4 cut(s)	520, 544, 887, 940
BciT130I	CCWGG	2 cut(s)	864, 1043
BcoDI	GTCTC	1 cut(s)	1143
BfaI	CTAG	1 cut(s)	24
BfmI	CTRYAG	2 cut(s)	237, 1006
BfuAI	ACCTGC	1 cut(s)	684
BisI	GCNGC	2 cut(s)	437, 1006
BlnI	CCTAGG	1 cut(s)	23
BlsI	GCNGC	2 cut(s)	438, 1007
Bme1390I	CCNGG	2 cut(s)	864, 1043
BmeT110I	CYCGRG	1 cut(s)	1032
BmrFI	CCNGG	2 cut(s)	864, 1043
BmsI	GCATC	2 cut(s)	646, 1123
BpiI	GAAGAC	1 cut(s)	394
Bpu14I	TTCGAA	1 cut(s)	62
BpuEI	CTTGAG	1 cut(s)	1227
BsaAI	YACGTR	1 cut(s)	351
BsaJI	CCNNGG	3 cut(s)	23, 192, 202
Bse1I	ACTGG	1 cut(s)	129
BseBI	CCWGG	2 cut(s)	864, 1043
BseDI	CCNNGG	3 cut(s)	23, 192, 202
BseGI	GGATG	3 cut(s)	378, 964, 1051
BseMII	CTCAG	1 cut(s)	1354
BseNI	ACTGG	1 cut(s)	129
BseRI	GAGGAG	1 cut(s)	342
BseXI	GCAGC	2 cut(s)	423, 992
BshFI	GGCC	1 cut(s)	191
BsiHKCI	CYCGRG	1 cut(s)	1032
BsiSI	CCGG	1 cut(s)	338
BsmAI	GTCTC	1 cut(s)	1143
BsmBI	CGTCTC	1 cut(s)	1143
BsmI	GAATGC	1 cut(s)	709
BsnI	GGCC	1 cut(s)	191
BsoBI	CYCGRG	1 cut(s)	1032
Bsp119I	TTCGAA	1 cut(s)	62
Bsp143I	GATC	4 cut(s)	120, 303, 493, 1234
BspANI	GGCC	1 cut(s)	191
BspCNI	CTCAG	1 cut(s)	1353
BspHI	TCATGA	3 cut(s)	150, 577, 1355
BspMAI	CTGCAG	1 cut(s)	1010
BspMI	ACCTGC	1 cut(s)	684
BspT104I	TTCGAA	1 cut(s)	62
BsrI	ACTGG	1 cut(s)	129
BssECI	CCNNGG	3 cut(s)	23, 192, 202
BssMI	GATC	4 cut(s)	120, 303, 493, 1234
BssT1I	CCWWGG	3 cut(s)	23, 192, 202
Bst2UI	CCWGG	2 cut(s)	864, 1043
Bst4CI	ACNGT	3 cut(s)	238, 476, 491
Bst6I	CTCTTC	2 cut(s)	800, 1049
BstAPI	GCANNNNNTGC	1 cut(s)	1299
BstBAI	YACGTR	1 cut(s)	351
BstBI	TTCGAA	1 cut(s)	62
BstC8I	GCNNGC	1 cut(s)	924
BstDEI	CTNAG	3 cut(s)	30, 762, 1340
BstF5I	GGATG	3 cut(s)	378, 964, 1051
BstKTI	GATC	4 cut(s)	123, 306, 496, 1237
BstMAI	GTCTC	1 cut(s)	1143
BstMBI	GATC	4 cut(s)	120, 303, 493, 1234
BstMWI	GCNNNNNNNGC	3 cut(s)	174, 713, 1299
BstNI	CCWGG	2 cut(s)	864, 1043
BstNSI	RCATGY	1 cut(s)	109
BstSCI	CCNGG	2 cut(s)	862, 1041
BstSFI	CTRYAG	2 cut(s)	237, 1006
BstV1I	GCAGC	2 cut(s)	423, 992
BstV2I	GAAGAC	1 cut(s)	394
BsuRI	GGCC	1 cut(s)	191
BtgZI	GCGATG	1 cut(s)	762
BtsCI	GGATG	3 cut(s)	378, 964, 1051
BtsIMutI	CAGTG	1 cut(s)	136
BveI	ACCTGC	1 cut(s)	684
Cac8I	GCNNGC	1 cut(s)	924
CciI	TCATGA	3 cut(s)	150, 577, 1355
Csp6I	GTAC	2 cut(s)	138, 1192
CviAII	CATG	7 cut(s)	106, 151, 263, 578, 589, 1261, 1356
CviQI	GTAC	2 cut(s)	138, 1192
DdeI	CTNAG	3 cut(s)	30, 762, 1340
DpnI	GATC	4 cut(s)	122, 305, 495, 1236
DpnII	GATC	4 cut(s)	120, 303, 493, 1234
Eam1104I	CTCTTC	2 cut(s)	800, 1049
EarI	CTCTTC	2 cut(s)	800, 1049
Eco130I	CCWWGG	3 cut(s)	23, 192, 202
Eco57I	CTGAAG	1 cut(s)	1123
Eco88I	CYCGRG	1 cut(s)	1032
EcoRII	CCWGG	2 cut(s)	862, 1041
EcoT14I	CCWWGG	3 cut(s)	23, 192, 202
ErhI	CCWWGG	3 cut(s)	23, 192, 202
Esp3I	CGTCTC	1 cut(s)	1143
FaeI	CATG	7 cut(s)	109, 154, 266, 581, 592, 1264, 1359
FalI	AAGNNNNNCTT	4 cut(s)	1221, 1253, 1236, 1268
FatI	CATG	7 cut(s)	105, 150, 262, 577, 588, 1260, 1355
Fnu4HI	GCNGC	2 cut(s)	437, 1006
FokI	GGATG	3 cut(s)	385, 951, 1058
Fsp4HI	GCNGC	2 cut(s)	437, 1006
FspBI	CTAG	1 cut(s)	24
GluI	GCNGC	2 cut(s)	437, 1006
HaeIII	GGCC	1 cut(s)	191
HapII	CCGG	1 cut(s)	338
Hin1II	CATG	7 cut(s)	109, 154, 266, 581, 592, 1264, 1359
HincII	GTYRAC	1 cut(s)	558
HindII	GTYRAC	1 cut(s)	558
HinfI	GANTC	5 cut(s)	70, 341, 574, 649, 1352
HpaII	CCGG	1 cut(s)	338
HphI	GGTGA	6 cut(s)	503, 541, 613, 1133, 1244, 1276
Hpy166II	GTNNAC	3 cut(s)	558, 1106, 1115
Hpy188I	TCNGA	6 cut(s)	300, 444, 1142, 1188, 1308, 1343
Hpy8I	GTNNAC	3 cut(s)	558, 1106, 1115
HpyAV	CCTTC	8 cut(s)	167, 529, 587, 734, 952, 1053, 1147, 1223
HpyCH4III	ACNGT	3 cut(s)	238, 476, 491
HpyCH4IV	ACGT	2 cut(s)	350, 1190
HpyF10VI	GCNNNNNNNGC	3 cut(s)	174, 713, 1299
HpyF3I	CTNAG	3 cut(s)	30, 762, 1340
HpySE526I	ACGT	2 cut(s)	350, 1190
Hsp92II	CATG	7 cut(s)	109, 154, 266, 581, 592, 1264, 1359
Kzo9I	GATC	4 cut(s)	120, 303, 493, 1234
LmnI	GCTCC	1 cut(s)	919
Lsp1109I	GCAGC	2 cut(s)	423, 992
LweI	GCATC	2 cut(s)	646, 1123
MaeI	CTAG	1 cut(s)	24
MaeII	ACGT	2 cut(s)	350, 1190
MaeIII	GTNAC	4 cut(s)	241, 451, 976, 1085
MalI	GATC	4 cut(s)	122, 305, 495, 1236
MboI	GATC	4 cut(s)	120, 303, 493, 1234
MboII	GAAGA	7 cut(s)	130, 399, 544, 647, 817, 850, 1066
MluCI	AATT	9 cut(s)	44, 65, 429, 565, 581, 1020, 1065, 1317, 1334
MmeI	TCCRAC	1 cut(s)	268
MseI	TTAA	7 cut(s)	144, 156, 228, 366, 681, 1068, 1254
MslI	CAYNNNNRTG	2 cut(s)	852, 969
MspI	CCGG	1 cut(s)	338
MspR9I	CCNGG	2 cut(s)	864, 1043
Mva1269I	GAATGC	1 cut(s)	709
MvaI	CCWGG	2 cut(s)	864, 1043
MwoI	GCNNNNNNNGC	3 cut(s)	174, 713, 1299
NdeII	GATC	4 cut(s)	120, 303, 493, 1234
NlaIII	CATG	7 cut(s)	109, 154, 266, 581, 592, 1264, 1359
NmuCI	GTSAC	1 cut(s)	976
NspI	RCATGY	1 cut(s)	109
NspV	TTCGAA	1 cut(s)	62
PaeR7I	CTCGAG	1 cut(s)	1032
PagI	TCATGA	3 cut(s)	150, 577, 1355
PciI	ACATGT	1 cut(s)	105
PctI	GAATGC	1 cut(s)	709
PfeI	GAWTC	5 cut(s)	70, 341, 574, 649, 1352
PfoI	TCCNGGA	1 cut(s)	1041
PkrI	GCNGC	2 cut(s)	438, 1007
Ppu21I	YACGTR	1 cut(s)	351
PscI	ACATGT	1 cut(s)	105
PshBI	ATTAAT	3 cut(s)	156, 366, 681
PsiI	TTATAA	2 cut(s)	459, 1205
Psp6I	CCWGG	2 cut(s)	862, 1041
PspGI	CCWGG	2 cut(s)	862, 1041
PstI	CTGCAG	1 cut(s)	1010
RsaI	GTAC	2 cut(s)	139, 1193
RsaNI	GTAC	2 cut(s)	138, 1192
RseI	CAYNNNNRTG	2 cut(s)	852, 969
SaqAI	TTAA	7 cut(s)	144, 156, 228, 366, 681, 1068, 1254
SatI	GCNGC	2 cut(s)	437, 1006
Sau3AI	GATC	4 cut(s)	120, 303, 493, 1234
ScrFI	CCNGG	2 cut(s)	864, 1043
SfaNI	GCATC	2 cut(s)	646, 1123
SfcI	CTRYAG	2 cut(s)	237, 1006
Sfr274I	CTCGAG	1 cut(s)	1032
SfuI	TTCGAA	1 cut(s)	62
SlaI	CTCGAG	1 cut(s)	1032
SmiMI	CAYNNNNRTG	2 cut(s)	852, 969
SmlI	CTYRAG	2 cut(s)	1032, 1242
SmoI	CTYRAG	2 cut(s)	1032, 1242
Sse9I	AATT	9 cut(s)	44, 65, 429, 565, 581, 1020, 1065, 1317, 1334
SspMI	CTAG	1 cut(s)	24
StyD4I	CCNGG	2 cut(s)	862, 1041
StyI	CCWWGG	3 cut(s)	23, 192, 202
TaaI	ACNGT	3 cut(s)	238, 476, 491
TaiI	ACGT	2 cut(s)	353, 1193
TaqI	TCGA	6 cut(s)	62, 73, 510, 625, 1033, 1147
TasI	AATT	9 cut(s)	44, 65, 429, 565, 581, 1020, 1065, 1317, 1334
TatI	WGTACW	1 cut(s)	137
TfiI	GAWTC	5 cut(s)	70, 341, 574, 649, 1352
Tru1I	TTAA	7 cut(s)	144, 156, 228, 366, 681, 1068, 1254
Tru9I	TTAA	7 cut(s)	144, 156, 228, 366, 681, 1068, 1254
TscAI	CASTG	1 cut(s)	136
TseFI	GTSAC	1 cut(s)	976
TseI	GCWGC	2 cut(s)	436, 1005
Tsp45I	GTSAC	1 cut(s)	976
TspRI	CASTG	1 cut(s)	136
VspI	ATTAAT	3 cut(s)	156, 366, 681
XapI	RAATTY	1 cut(s)	1334
XceI	RCATGY	1 cut(s)	109
XhoI	CTCGAG	1 cut(s)	1032
XmaJI	CCTAGG	1 cut(s)	23
XspI	CTAG	1 cut(s)	24

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.